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RARGE specifications

Information


Unique identifier OMICS_11997
Name RARGE
Alternative names RIKEN Arabidopsis Genome Encyclopedia, RARGE II
Restrictions to use None
Database management system MySQL
Community driven No
Data access Browse
User data submission Not allowed
Maintained Yes

Taxon


  • Plants and Fungi
    • Arabidopsis thaliana

Maintainer


  • person_outline Kenji Akiyama

Publications for RIKEN Arabidopsis Genome Encyclopedia

RARGE citations

 (6)
library_books

The SERRATE protein is involved in alternative splicing in Arabidopsis thaliana

2013
Nucleic Acids Res
PMCID: 3902902
PMID: 24137006
DOI: 10.1093/nar/gkt894

[…] published AS events or taken from five different Arabidopsis/plant bioinformatics databases: ASIP (http://www.plantgdb.org/ASIP/EnterDB.php), TIGR (http://www.tigr.org/tdb/e2k1/ath1/), RIKEN (http://rarge.gsc.riken.jp/a_splicing/index.pl), ASTRA (http://alterna.cbrc.jp/) and TAIR 7.0 (http://www.arabidopsis.org/index.jsp) (). The size of RT-PCR products ranged between 60 and 700 bp. To visualize […]

library_books

Functional Identification and Characterization of the Brassica Napus Transcription Factor Gene BnAP2, the Ortholog of Arabidopsis Thaliana APETALA2

2012
PLoS One
PMCID: 3314020
PMID: 22479468
DOI: 10.1371/journal.pone.0033890

[…] To detect BnAP2 homolog in A. thaliana, all the protein sequences of AP2-domain genes in A. thaliana were downloaded from RARTF database (http://rarge.psc.riken.jp/rartf/) . Selected 145 Arabidopsis AP2-domain genes and target BnAP2 were used to constructed phylogenetic trees with the MEGA5.0 software package –. Phylogenetic relationship was i […]

library_books

A Central Regulatory System Largely Controls Transcriptional Activation and Repression Responses to Phosphate Starvation in Arabidopsis

2010
PLoS Genet
PMCID: 2936532
PMID: 20838596
DOI: 10.1371/journal.pgen.1001102

[…] up- and down-regulated genes were identified by the Meta-Analyser tool included in this platform. Transcription factor genes for transcriptomic analysis were identified in the RARTF Database (http://rarge.psc.riken.jp/rartf/) . […]

library_books

Genomics and Bioinformatics Resources for Crop Improvement

2010
PMCID: 2852516
PMID: 20208064
DOI: 10.1093/pcp/pcq027

[…] titute Genomic Analysis Laboratory (SIGnAL) is also an information resource that integrates various data sets of significant omics results mainly related to Arabidopsis (http://signal.salk.edu/). The RIKEN Arabidopsis Genome Encyclopedia (RARGE) provides information on various genomic resources built at RIKEN for Arabidopsis research (http://rarge.gsc.riken.jp/db_home.pl) (). Such portal sites hav […]

library_books

The Puf family of RNA binding proteins in plants: phylogeny, structural modeling, activity and subcellular localization

2010
BMC Plant Biol
PMCID: 2848763
PMID: 20214804
DOI: 10.1186/1471-2229-10-44

[…] ed PUM-HD. The amino acid sequence of the Drosophila PUM-HD (residues 1093 to 1427) [] was queried against Arabidopsis (http://www.ncbi.nlm.nih.gov/genome/seq/BlastGen/BlastGen.cgi?taxid=3702; http://rarge.gsc.riken.jp/; http://www.tigr.org/tdb/e2k1/osa1/) rice http://rice.plantbiology.msu.edu/index.shtml, moss (Physcomitrella patens, http://www.cosmoss.org/), and Chlamydomonas reinhardtii http:// […]

library_books

Involvement of the nuclear cap binding protein complex in alternative splicing in Arabidopsis thaliana

2009
Nucleic Acids Res
PMCID: 2800227
PMID: 19864257
DOI: 10.1093/nar/gkp869

[…] either published AS events or from five different Arabidopsis/plant bioinformatics databases: ASIP (http://www.plantgdb.org/ASIP/EnterDB.php), TIGR (http://www.tigr.org/tdb/e2k1/ath1/), RIKEN (http://rarge.gsc.riken.jp/a_splicing/index.pl), ASTRA (http://alterna.cbrc.jp/) and TAIR 7.0 (http://www.arabidopsis.org/index.jsp). Seven genes were used as controls and amplified intronless regions (At5g03 […]

Citations

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RARGE institution(s)
RIKEN Center for Sustainable Resource Science, Yokohama, Kanagawa, Japan; Graduate School of Medicine, Kyoto University, Kyoto, Japan
RARGE funding source(s)
This work was supported by the Japan Society for the Promotion of Science [a Grant-in-Aid for Young Scientists (B) (18700106)].

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